Explicit equilibrium modeling of transcription-factor binding and gene regulation.
Publication
, Journal Article
Granek, JA; Clarke, ND
Published in: Genome Biol
2005
We have developed a computational model that predicts the probability of transcription factor binding to any site in the genome. GOMER (generalizable occupancy model of expression regulation) calculates binding probabilities on the basis of position weight matrices, and incorporates the effects of cooperativity and competition by explicit calculation of coupled binding equilibria. GOMER can be used to test hypotheses regarding gene regulation that build upon this physically principled prediction of protein-DNA binding.
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Published In
Genome Biol
DOI
EISSN
1474-760X
Publication Date
2005
Volume
6
Issue
10
Start / End Page
R87
Location
England
Related Subject Headings
- Transcription Factors
- Saccharomyces cerevisiae Proteins
- Repressor Proteins
- Protein Binding
- Promoter Regions, Genetic
- Oligonucleotide Array Sequence Analysis
- Nuclear Proteins
- Models, Genetic
- Genes, cdc
- Gene Expression Regulation
Citation
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Chicago
ICMJE
MLA
NLM
Granek, J. A., & Clarke, N. D. (2005). Explicit equilibrium modeling of transcription-factor binding and gene regulation. Genome Biol, 6(10), R87. https://doi.org/10.1186/gb-2005-6-10-r87
Granek, Joshua A., and Neil D. Clarke. “Explicit equilibrium modeling of transcription-factor binding and gene regulation.” Genome Biol 6, no. 10 (2005): R87. https://doi.org/10.1186/gb-2005-6-10-r87.
Granek JA, Clarke ND. Explicit equilibrium modeling of transcription-factor binding and gene regulation. Genome Biol. 2005;6(10):R87.
Granek, Joshua A., and Neil D. Clarke. “Explicit equilibrium modeling of transcription-factor binding and gene regulation.” Genome Biol, vol. 6, no. 10, 2005, p. R87. Pubmed, doi:10.1186/gb-2005-6-10-r87.
Granek JA, Clarke ND. Explicit equilibrium modeling of transcription-factor binding and gene regulation. Genome Biol. 2005;6(10):R87.
Published In
Genome Biol
DOI
EISSN
1474-760X
Publication Date
2005
Volume
6
Issue
10
Start / End Page
R87
Location
England
Related Subject Headings
- Transcription Factors
- Saccharomyces cerevisiae Proteins
- Repressor Proteins
- Protein Binding
- Promoter Regions, Genetic
- Oligonucleotide Array Sequence Analysis
- Nuclear Proteins
- Models, Genetic
- Genes, cdc
- Gene Expression Regulation